Array 1 28622-27878 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIJ01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM18, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 28621 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 28559 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 28456 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 28395 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 28334 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 28273 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 28212 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 28151 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 28090 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 28029 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 27968 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 27907 29 96.6 0 A............................ | A [27880] ========== ====== ====== ====== ============================= ========================================================================== ================== 12 29 99.4 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.97 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.25, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-1.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 9-1501 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIJ01000351.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 9 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 70 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 131 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 192 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 253 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 314 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 375 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 436 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 497 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 558 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 619 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 680 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 741 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 802 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 863 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 924 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 986 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1047 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1108 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1169 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1230 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1291 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1352 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1413 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1474 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGTTTAGTG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [8.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1133-6 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIJ01000375.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM18, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1132 27 93.1 32 --........................... AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1073 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1012 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 951 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 890 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 828 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 767 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 706 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 645 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 584 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 523 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 462 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 401 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 340 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 279 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 218 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 157 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 96 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 34 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 19 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GAATAA # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [8.3-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //